Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0000563

Physical Location & Seq

Genomic Coordinates Reverse (-)

18749299 .. 18751447

Gene Structure 2149 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0118400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 849 bp

ATGTCGCACTCCTACGGCGAAAGCGACACCGTTCCCCTCCACCCTTCCTCCCAGTCCGACATCGACGAGATCGAAAACCTAATCAACGCCAGCGTCCAATCCGGCCCCACCACCGTCCTCCCCGCCAAGCCTCCCAGCCCCCCCCGCGCCTCCATCCCCGTCTCCTCCTCCCCCTTCATCCAATCCAACCTCCCCCAACCGGCCCCTCCCGCCTCCTCCAAGCCCAAGCCTCCGCCGCCGTCCTCCGCCCCCGCCCCTCCCCCCGTCCCCTCCGCCGCCAACAACATCGCCGCTTCCGGGTTCGGGTCCCCGCCCAACACCCTAACGGAGCCCGTTTGGGACACCGTCAAGAGGGACTTGTCTCGGATCGTCAGCAATTTGAAGCTCGTCGTCTTCCCTAACCCCTACCGTGAGGACCCCGGAAAGGCTCTCAGGGATTGGGATCTATGGGGTCCTTTCTTCTTCATTGTGTTCTTGGGCCTCACTCTCTCCTGGTCTGCATCTGTCAAGAAGTCTGAAGTTTTTGCTGTTGCATTTGCTGTACTTGCTGCTGGTGCTGTGATTTTGACGTTGAATGTACTCCTACTGGGGGGACACATAATTTTCTTTCAGAGCCTAAGTCTTCTTGGTTATTGCTTATTCCCTCTGGATGTTGGAGCTTTAATCTGTATGGTGAAGGACAATGTGATATTGAAGGTGGTTGTAGTAAGCATTACACTTGCTTGGAGTTCTTGGTCTGCATATCCTTTCATGAGTTCAGCAGTCAACCCCAGGAGAAAAGCTCTCGCACTTTACCCAGTTTTTTTGCTGTATGTATCTGTTGGTTTTCTTATCATCGCCATTGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006464 GO:0006479 GO:0006807 GO:0008150 GO:0008152 GO:0008168 GO:0008170 GO:0008213 GO:0008276 GO:0008757 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016278 GO:0016279 GO:0016740 GO:0016741 GO:0018022 GO:0018023 GO:0018026 GO:0018193 GO:0018205 GO:0019538 GO:0032259 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rubis-subs-bind SET

Protein Analysis

282

Amino Acids

30.13

Weight (kDa)

7.76

Isoelectric Point (pI)

63.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Yip1	PF04893	144 - 276	4.6e-15	Yip1 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000563)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g40701 FvH4_3g40701 FvH4_3g42210 FvH4_4g30821 FvH4_4g30830 FvH4_4g30861 FvH4_4g30870 FvH4_4g30880 FvH4_4g30890 FvH4_6g30071 FvH4_6g44331 FvH4_6g44332 FvH4_6g44333
malus_domestica	MD15G1041200.v1.1 MD15G1041700.v1.1 MD15G1401000.v1.1
prunus_persica	Prupe.5G008800_v2.0.a1 Prupe.5G157900_v2.0.a1
pyrus_communis	pycom05g01010 pycom15g03820 pycom15g03830 pycom15g03850 pycom15g04240
rosa_chinensis	RchiOBHm_Chr5g0075231
rosa_laevigata	RLG00000008231 RLG00000008232 RLG00000008235 RLG00000008239 RLG00000008240 RLG00000008241 RLG00000021260 RLG00000021269 RLG00000036539 RLG00000036540 RLG00000037046
rosa_multiflora	Rmu_sc0000955.1_g000047 Rmu_sc0006420.1_g000034
rosa_roxburghii	Rroxscaffold_1G00000870 Rroxscaffold_1G00000880 Rroxscaffold_1G00006320 Rroxscaffold_2G00088990 Rroxscaffold_2G00089000 Rroxscaffold_2G00089010 Rroxscaffold_2G00089100 Rroxscaffold_5G00357190 Rroxscaffold_5G00357200
rosa_rugosa	Rorug04G0118300 Rorug04G0118400 Rorug05G0437400 Rorug05G0439900
rosa_samantha	Rh2AG552900 Rh2AG553000 Rh2BG566800 Rh2CG536900 Rh2DG575800 Rh2DG575900 Rh4AG177300 Rh4AG177400 Rh4AG178100 Rh4AG178300 Rh4AG178400 Rh4AG178500 Rh4BG177100 Rh4BG177200 Rh4BG177700 Rh4CG188300 Rh4CG188700 Rh4CG188800 Rh4CG189000 Rh4CG189100 Rh5AG494400 Rh5AG497000 Rh5AG537400 Rh5BG515800 Rh5BG515900 Rh5BG516000 Rh5CG539600 Rh5CG539700 Rh5CG539800 Rh5DG528600 Rh5DG528700
rosa_wichuraiana	Rw2G045740 Rw4G014830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	147
AclWI	GGATC	2 cut(s)	374, 450
AcuI	CTGAAG	1 cut(s)	537
AfaI	GTAC	2 cut(s)	543, 579
AfiI	CCNNNNNNNGG	6 cut(s)	199, 297, 303, 351, 424, 589
AgsI	TTSAA	3 cut(s)	382, 574, 694
AjnI	CCWGG	2 cut(s)	491, 770
AluBI	AGCT	3 cut(s)	385, 659, 782
AluI	AGCT	3 cut(s)	385, 659, 782
Alw26I	GTCTC	2 cut(s)	166, 366
AlwI	GGATC	2 cut(s)	374, 450
AoxI	GGCC	3 cut(s)	103, 201, 478
ApeKI	GCWGC	1 cut(s)	548
AspLEI	GCGC	1 cut(s)	149
AspS9I	GGNCC	6 cut(s)	104, 202, 306, 415, 452, 478
AsuC2I	CCSGG	2 cut(s)	298, 420
AsuHPI	GGTGA	1 cut(s)	685
AvaII	GGWCC	3 cut(s)	306, 415, 452
BanII	GRGCYC	1 cut(s)	333
BbsI	GAAGAC	2 cut(s)	385, 614
BbvI	GCAGC	1 cut(s)	535
BccI	CCATC	1 cut(s)	161
BceAI	ACGGC	2 cut(s)	31, 223
BciT130I	CCWGG	2 cut(s)	493, 772
BcnI	CCSGG	2 cut(s)	298, 420
BcoDI	GTCTC	2 cut(s)	166, 366
BisI	GCNGC	4 cut(s)	236, 276, 291, 549
BlsI	GCNGC	4 cut(s)	237, 277, 292, 550
Bme1390I	CCNGG	4 cut(s)	298, 420, 493, 772
Bme18I	GGWCC	3 cut(s)	306, 415, 452
BmgT120I	GGNCC	6 cut(s)	104, 202, 306, 415, 452, 478
BmiI	GGNNCC	7 cut(s)	106, 204, 307, 308, 330, 417, 453
BmrFI	CCNGG	4 cut(s)	298, 420, 493, 772
BmrI	ACTGGG	3 cut(s)	46, 596, 791
BmsI	GCATC	1 cut(s)	509
BmuI	ACTGGG	3 cut(s)	46, 596, 791
BpiI	GAAGAC	2 cut(s)	385, 614
BplI	GAGNNNNNCTC	2 cut(s)	766, 798
BpuMI	CCSGG	2 cut(s)	298, 420
BsaBI	GATNNNNATC	1 cut(s)	441
BsaJI	CCNNGG	2 cut(s)	418, 770
BsaXI	ACNNNNNCTCC	2 cut(s)	32, 62
Bsc4I	CCNNNNNNNGG	6 cut(s)	199, 297, 303, 351, 424, 589
Bse118I	RCCGGY	1 cut(s)	199
Bse1I	ACTGG	3 cut(s)	52, 591, 797
Bse8I	GATNNNNATC	1 cut(s)	441
BseBI	CCWGG	2 cut(s)	493, 772
BseDI	CCNNGG	2 cut(s)	418, 770
BseGI	GGATG	3 cut(s)	153, 177, 655
BseJI	GATNNNNATC	1 cut(s)	441
BseLI	CCNNNNNNNGG	6 cut(s)	199, 297, 303, 351, 424, 589
BseMII	CTCAG	1 cut(s)	445
BseNI	ACTGG	3 cut(s)	52, 591, 797
BseRI	GAGGAG	3 cut(s)	154, 157, 205
BseXI	GCAGC	1 cut(s)	535
BseYI	CCCAGC	1 cut(s)	134
Bsh1236I	CGCG	1 cut(s)	147
BshFI	GGCC	3 cut(s)	105, 203, 480
BsiSI	CCGG	4 cut(s)	102, 200, 297, 420
BslFI	GGGAC	5 cut(s)	251, 292, 353, 368, 606
BslI	CCNNNNNNNGG	6 cut(s)	199, 297, 303, 351, 424, 589
BsmAI	GTCTC	2 cut(s)	166, 366
BsmBI	CGTCTC	1 cut(s)	166
BsmFI	GGGAC	5 cut(s)	251, 292, 353, 368, 606
BsnI	GGCC	3 cut(s)	105, 203, 480
Bsp1286I	GDGCHC	1 cut(s)	333
Bsp143I	GATC	3 cut(s)	69, 366, 442
BspANI	GGCC	3 cut(s)	105, 203, 480
BspCNI	CTCAG	1 cut(s)	444
BspFNI	CGCG	1 cut(s)	147
BspHI	TCATGA	1 cut(s)	750
BspLI	GGNNCC	7 cut(s)	106, 204, 307, 308, 330, 417, 453
BspPI	GGATC	2 cut(s)	374, 450
BsrFI	RCCGGY	1 cut(s)	199
BsrI	ACTGG	3 cut(s)	52, 591, 797
BssAI	RCCGGY	1 cut(s)	199
BssECI	CCNNGG	2 cut(s)	418, 770
BssMI	GATC	3 cut(s)	69, 366, 442
Bst2UI	CCWGG	2 cut(s)	493, 772
Bst4CI	ACNGT	4 cut(s)	31, 115, 346, 410
BstC8I	GCNNGC	1 cut(s)	91
BstDEI	CTNAG	2 cut(s)	431, 617
BstF5I	GGATG	3 cut(s)	153, 177, 655
BstFNI	CGCG	1 cut(s)	147
BstHHI	GCGC	1 cut(s)	149
BstKTI	GATC	3 cut(s)	72, 369, 445
BstMAI	GTCTC	2 cut(s)	166, 366
BstMBI	GATC	3 cut(s)	69, 366, 442
BstMWI	GCNNNNNNNGC	5 cut(s)	144, 209, 235, 545, 554
BstNI	CCWGG	2 cut(s)	493, 772
BstSCI	CCNGG	4 cut(s)	296, 418, 491, 770
BstUI	CGCG	1 cut(s)	147
BstV1I	GCAGC	1 cut(s)	535
BstV2I	GAAGAC	2 cut(s)	385, 614
BstX2I	RGATCY	1 cut(s)	442
BstYI	RGATCY	1 cut(s)	442
BsuRI	GGCC	3 cut(s)	105, 203, 480
BtgZI	GCGATG	2 cut(s)	271, 820
BtsCI	GGATG	3 cut(s)	153, 177, 655
Cac8I	GCNNGC	1 cut(s)	91
CciI	TCATGA	1 cut(s)	750
CfoI	GCGC	1 cut(s)	149
Cfr10I	RCCGGY	1 cut(s)	199
Cfr13I	GGNCC	6 cut(s)	104, 202, 306, 415, 452, 478
CseI	GACGC	1 cut(s)	82
Csp6I	GTAC	2 cut(s)	542, 578
CviAII	CATG	1 cut(s)	751
CviQI	GTAC	2 cut(s)	542, 578
DdeI	CTNAG	2 cut(s)	431, 617
DpnI	GATC	3 cut(s)	71, 368, 444
DpnII	GATC	3 cut(s)	69, 366, 442
EciI	GGCGGA	3 cut(s)	222, 235, 262
Eco24I	GRGCYC	1 cut(s)	333
Eco47I	GGWCC	3 cut(s)	306, 415, 452
Eco57I	CTGAAG	1 cut(s)	537
EcoO109I	RGGNCCY	3 cut(s)	306, 415, 452
EcoRII	CCWGG	2 cut(s)	491, 770
EcoT38I	GRGCYC	1 cut(s)	333
Esp3I	CGTCTC	1 cut(s)	166
FaeI	CATG	1 cut(s)	754
FaiI	YATR	6 cut(s)	448, 599, 671, 742, 752, 813
FalI	AAGNNNNNCTT	2 cut(s)	341, 373
FaqI	GGGAC	5 cut(s)	251, 292, 353, 368, 606
FatI	CATG	1 cut(s)	750
FauI	CCCGC	5 cut(s)	130, 152, 217, 259, 318
Fnu4HI	GCNGC	4 cut(s)	236, 276, 291, 549
FokI	GGATG	3 cut(s)	140, 164, 662
FriOI	GRGCYC	1 cut(s)	333
Fsp4HI	GCNGC	4 cut(s)	236, 276, 291, 549
GlaI	GCGC	1 cut(s)	148
GluI	GCNGC	4 cut(s)	236, 276, 291, 549
GsaI	CCCAGC	1 cut(s)	138
HaeIII	GGCC	3 cut(s)	105, 203, 480
HapII	CCGG	4 cut(s)	102, 200, 297, 420
HgaI	GACGC	1 cut(s)	82
HhaI	GCGC	1 cut(s)	149
Hin1II	CATG	1 cut(s)	754
Hin6I	GCGC	1 cut(s)	147
HinP1I	GCGC	1 cut(s)	147
HincII	GTYRAC	1 cut(s)	766
HindII	GTYRAC	1 cut(s)	766
HpaII	CCGG	4 cut(s)	102, 200, 297, 420
HphI	GGTGA	1 cut(s)	685
Hpy166II	GTNNAC	1 cut(s)	766
Hpy188I	TCNGA	4 cut(s)	58, 366, 517, 612
Hpy188III	TCNNGA	4 cut(s)	349, 508, 647, 751
Hpy8I	GTNNAC	1 cut(s)	766
Hpy99I	CGWCG	2 cut(s)	68, 392
HpyAV	CCTTC	4 cut(s)	54, 184, 670, 688
HpyCH4III	ACNGT	4 cut(s)	31, 115, 346, 410
HpyCH4IV	ACGT	1 cut(s)	569
HpyCH4V	TGCA	3 cut(s)	500, 533, 740
HpyF10VI	GCNNNNNNNGC	5 cut(s)	144, 209, 235, 545, 554
HpyF3I	CTNAG	2 cut(s)	431, 617
HpySE526I	ACGT	1 cut(s)	569
Hsp92II	CATG	1 cut(s)	754
HspAI	GCGC	1 cut(s)	147
KflI	GGGWCCC	1 cut(s)	306
Kzo9I	GATC	3 cut(s)	69, 366, 442
LmnI	GCTCC	2 cut(s)	328, 656
Lsp1109I	GCAGC	1 cut(s)	535
LweI	GCATC	1 cut(s)	509
MaeII	ACGT	1 cut(s)	569
MalI	GATC	3 cut(s)	71, 368, 444
MboI	GATC	3 cut(s)	69, 366, 442
MboII	GAAGA	4 cut(s)	385, 451, 454, 614
MflI	RGATCY	1 cut(s)	442
MhlI	GDGCHC	1 cut(s)	333
MluCI	AATT	2 cut(s)	376, 600
MmeI	TCCRAC	3 cut(s)	81, 210, 634
MseI	TTAA	2 cut(s)	662, 847
MspI	CCGG	4 cut(s)	102, 200, 297, 420
MspR9I	CCNGG	4 cut(s)	298, 420, 493, 772
MvaI	CCWGG	2 cut(s)	493, 772
MvnI	CGCG	1 cut(s)	147
MwoI	GCNNNNNNNGC	5 cut(s)	144, 209, 235, 545, 554
NciI	CCSGG	2 cut(s)	298, 420
NdeII	GATC	3 cut(s)	69, 366, 442
NlaIII	CATG	1 cut(s)	754
NlaIV	GGNNCC	7 cut(s)	106, 204, 307, 308, 330, 417, 453
PagI	TCATGA	1 cut(s)	750
PcsI	WCGNNNNNNNCGW	2 cut(s)	21, 69
PflFI	GACNNNGTC	1 cut(s)	344
PkrI	GCNGC	4 cut(s)	237, 277, 292, 550
PpuMI	RGGWCCY	3 cut(s)	306, 415, 452
Psp5II	RGGWCCY	3 cut(s)	306, 415, 452
Psp6I	CCWGG	2 cut(s)	491, 770
PspFI	CCCAGC	1 cut(s)	134
PspGI	CCWGG	2 cut(s)	491, 770
PspN4I	GGNNCC	7 cut(s)	106, 204, 307, 308, 330, 417, 453
PspPI	GGNCC	6 cut(s)	104, 202, 306, 415, 452, 478
PspPPI	RGGWCCY	3 cut(s)	306, 415, 452
PsuI	RGATCY	1 cut(s)	442
PsyI	GACNNNGTC	1 cut(s)	344
RsaI	GTAC	2 cut(s)	543, 579
RsaNI	GTAC	2 cut(s)	542, 578
SaqAI	TTAA	2 cut(s)	662, 847
SatI	GCNGC	4 cut(s)	236, 276, 291, 549
Sau3AI	GATC	3 cut(s)	69, 366, 442
Sau96I	GGNCC	6 cut(s)	104, 202, 306, 415, 452, 478
ScrFI	CCNGG	4 cut(s)	298, 420, 493, 772
SduI	GDGCHC	1 cut(s)	333
SetI	ASST	7 cut(s)	81, 192, 387, 572, 661, 699, 784
SfaNI	GCATC	1 cut(s)	509
SinI	GGWCC	3 cut(s)	306, 415, 452
Sse9I	AATT	2 cut(s)	376, 600
StyD4I	CCNGG	4 cut(s)	296, 418, 491, 770
TaaI	ACNGT	4 cut(s)	31, 115, 346, 410
TaiI	ACGT	1 cut(s)	572
TaqI	TCGA	2 cut(s)	63, 72
TasI	AATT	2 cut(s)	376, 600
TatI	WGTACW	2 cut(s)	541, 577
TauI	GCSGC	3 cut(s)	238, 278, 293
Tru1I	TTAA	2 cut(s)	662, 847
Tru9I	TTAA	2 cut(s)	662, 847
TseI	GCWGC	1 cut(s)	548
TspDTI	ATGAA	3 cut(s)	166, 454, 739
TspGWI	ACGGA	1 cut(s)	341
Tth111I	GACNNNGTC	1 cut(s)	344
VpaK11BI	GGWCC	3 cut(s)	306, 415, 452

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.